arXiv:2510.26887v1 Announce Type: new Abstract: We present Denario, an AI multi-agent system designed to serve as a scientific research assistant. Denario can perform many different tasks, such as generating ideas, checking the literature, developing research plans, writing and executing code, making plots, and drafting and reviewing a scientific paper. The system has a modular architecture, allowing it to handle specific tasks, such as generating an idea, or carrying out end-to-end scientific analysis using Cmbagent as a deep-research backend. In this work, we describe in detail Denario and its modules, and illustrate its capabilities by presenting multiple AI-generated papers generated by it in many different scientific disciplines such as astrophysics, biology, biophysics, biomedical informatics, chemistry, material science, mathematical physics, medicine, neuroscience and planetary science. Denario also excels at combining ideas from different disciplines, and we illustrate this by showing a paper that applies methods from quantum physics and machine learning to astrophysical data. We report the evaluations performed on these papers by domain experts, who provided both numerical scores and review-like feedback. We then highlight the strengths, weaknesses, and limitations of the current system. Finally, we discuss the ethical implications of AI-driven research and reflect on how such technology relates to the philosophy of science. We publicly release the code at https://github.com/AstroPilot-AI/Denario. A Denario demo can also be run directly on the web at https://huggingface.co/spaces/astropilot-ai/Denario, and the full app will be deployed on the cloud.

arXiv:2510.27009v1 Announce Type: new Abstract: Language models are traditionally designed around causal masking. In domains with spatial or relational structure, causal masking is often viewed as inappropriate, and sequential linearizations are instead used. Yet the question of whether it is viable to accept the information loss introduced by causal masking on nonsequential data has received little direct study, in part because few domains offer both spatial and sequential representations of the same dataset. In this work, we investigate this issue in the domain of chess, which naturally supports both representations. We train language models with bidirectional and causal self-attention mechanisms on both spatial (board-based) and sequential (move-based) data. Our results show that models trained on spatial board states - \textit{even with causal masking} - consistently achieve stronger playing strength than models trained on sequential data. While our experiments are conducted on chess, our results are methodological and may have broader implications: applying causal masking to spatial data is a viable procedure for training unimodal LLMs on spatial data, and in some domains is even preferable to sequentialization.

arXiv:2510.27051v1 Announce Type: new Abstract: Enterprise AI agents must continuously adapt to maintain accuracy, reduce latency, and remain aligned with user needs. We present a practical implementation of a data flywheel in NVInfo AI, NVIDIA's Mixture-of-Experts (MoE) Knowledge Assistant serving over 30,000 employees. By operationalizing a MAPE-driven data flywheel, we built a closed-loop system that systematically addresses failures in retrieval-augmented generation (RAG) pipelines and enables continuous learning. Over a 3-month post-deployment period, we monitored feedback and collected 495 negative samples. Analysis revealed two major failure modes: routing errors (5.25\%) and query rephrasal errors (3.2\%). Using NVIDIA NeMo microservices, we implemented targeted improvements through fine-tuning. For routing, we replaced a Llama 3.1 70B model with a fine-tuned 8B variant, achieving 96\% accuracy, a 10x reduction in model size, and 70\% latency improvement. For query rephrasal, fine-tuning yielded a 3.7\% gain in accuracy and a 40\% latency reduction. Our approach demonstrates how human-in-the-loop (HITL) feedback, when structured within a data flywheel, transforms enterprise AI agents into self-improving systems. Key learnings include approaches to ensure agent robustness despite limited user feedback, navigating privacy constraints, and executing staged rollouts in production. This work offers a repeatable blueprint for building robust, adaptive enterprise AI agents capable of learning from real-world usage at scale.

arXiv:2510.27353v1 Announce Type: new Abstract: Recent studies have suggested that Large Language Models (LLMs) could provide interesting ideas contributing to mathematical discovery. This claim was motivated by reports that LLM-based genetic algorithms produced heuristics offering new insights into the online bin packing problem under uniform and Weibull distributions. In this work, we reassess this claim through a detailed analysis of the heuristics produced by LLMs, examining both their behavior and interpretability. Despite being human-readable, these heuristics remain largely opaque even to domain experts. Building on this analysis, we propose a new class of algorithms tailored to these specific bin packing instances. The derived algorithms are significantly simpler, more efficient, more interpretable, and more generalizable, suggesting that the considered instances are themselves relatively simple. We then discuss the limitations of the claim regarding LLMs' contribution to this problem, which appears to rest on the mistaken assumption that the instances had previously been studied. Our findings instead emphasize the need for rigorous validation and contextualization when assessing the scientific value of LLM-generated outputs.

arXiv:2510.27629v1 Announce Type: cross Abstract: Open-weight bio-foundation models present a dual-use dilemma. While holding great promise for accelerating scientific research and drug development, they could also enable bad actors to develop more deadly bioweapons. To mitigate the risk posed by these models, current approaches focus on filtering biohazardous data during pre-training. However, the effectiveness of such an approach remains unclear, particularly against determined actors who might fine-tune these models for malicious use. To address this gap, we propose \eval, a framework to evaluate the robustness of procedures that are intended to reduce the dual-use capabilities of bio-foundation models. \eval assesses models' virus understanding through three lenses, including sequence modeling, mutational effects prediction, and virulence prediction. Our results show that current filtering practices may not be particularly effective: Excluded knowledge can be rapidly recovered in some cases via fine-tuning, and exhibits broader generalizability in sequence modeling. Furthermore, dual-use signals may already reside in the pretrained representations, and can be elicited via simple linear probing. These findings highlight the challenges of data filtering as a standalone procedure, underscoring the need for further research into robust safety and security strategies for open-weight bio-foundation models.